This dataset was derived from tracked biopsy sessions using the Artemis biopsy system, many of which included image fusion with MRI targets. Patients received a 3D transrectal ultrasound scan, after which nonrigid registration (e.g. “fusion”) was performed between real-time ultrasound and preoperative MRI, enabling biopsy cores to be sampled from MR regions of interest. Most cases also included sampling of systematic biopsy cores using a 12-core digital template. The Artemis system tracked targeted and systematic core locations using encoder kinematics of a mechanical arm, and recorded locations relative to the Ultrasound scan. MRI biopsy coordinates were also recorded for most cases.
MRI targets were defined using multiparametric MRI, e.g. t2-weighted, diffusion-weighted, and perfusion-weighted sequences, and scored on a Likert-like scale with close correspondence to PIRADS version 2. t2-weighted MRI was used to trace ROI contours, and is the only sequence provided in this dataset. MR imaging was performed on a 3 Tesla Trio, Verio or Skyra scanner (Siemens, Erlangen, Germany). A transabdominal phased array was used in all cases, and an endorectal coil was used in a subset of cases. The majority of pulse sequences are 3D T2:SPC, with TR/TE 2200/203, Matrix/FOV 256 × 205/14 × 14 cm, and 1.5mm slice spacing. Some cases were instead 3D T2:TSE with TR/TE 3800–5040/101, and a small minority were imported from other institutions (various T2 protocols.)
Ultrasound scans were performed with Hitachi Hi-Vision 5500 7.5 MHz or the Noblus C41V 2-10 MHz end-fire probe. 3D scans were acquired by rotation of the end-fire probe 200 degrees about its axis, and interpolating to resample the volume with isotropic resolution.
Patients with suspicion of prostate cancer due to elevated PSA and/or suspicious imaging findings were consecutively accrued. Any consented patient who underwent or had planned to receive a routine, standard-of-care prostate biopsy at the UCLA Clark Urology Center was included.
Note: Some Private Tags in this collection are critical to properly displaying the STL surface and the Prostate anatomy. Private Tag (1129,"Eigen Artemis",1016) DS VoxelSize is especially important for multi-frame US cases.
We would like to acknowledge the individuals and institutions that have provided data for this collection:
- This work was supported in part by the National Cancer Institute Award R01CA158627, Prostate Cancer SPORE at University of California-Los Angeles P50CA092131, the Beckman Coulter Foundation, Jean Perkins Foundation, and Steven C. Gordon Family Foundation
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|Images Size (GB)||78.7|
Citations & Data Usage Policy
These collections are freely available to browse, download, and use for commercial, scientific and educational purposes as outlined in the Creative Commons Attribution 3.0 Unported License. Questions may be directed to firstname.lastname@example.org. Please be sure to acknowledge both this data set and TCIA in publications by including the following citations in your work:
Natarajan, S., Priester, A., Margolis, D., Huang, J., & Marks, L. (2020). Prostate MRI and Ultrasound With Pathology and Coordinates of Tracked Biopsy [Data set]. The Cancer Imaging Archive. DOI: 10.7937/TCIA.2020.A61IOC1A
Sonn, Geoffrey A., Shyam Natarajan, Daniel JA Margolis, Malu MacAiran, Patricia Lieu, Jiaoti Huang, Frederick J. Dorey, and Leonard S. Marks. "Targeted biopsy in the detection of prostate cancer using an office based magnetic resonance ultrasound fusion device." The Journal of Urology 189, no. 1 (2013): 86-92
Clark K, Vendt B, Smith K, Freymann J, Kirby J, Koppel P, Moore S, Phillips S, Maffitt D, Pringle M, Tarbox L, Prior F. The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository, Journal of Digital Imaging, Volume 26, Number 6, December, 2013, pp 1045-1057. DOI: 10.1007/s10278-013-9622-7
Other Publications Using This Data
Version 1 (Current): 2020/04/20
|Data Type||Download all or Query/Filter|
|Images (DICOM) 78.7 (GB)|
(Requires NBIA Data Retriever.)
|Supplemental Data (format)|
Added new subjects.